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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1031
total RNA-seq
854
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
27
WGBS
24
pCHi-C
16
Hi-C
16
small RNA-seq
15
DNase-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
854
DNA binding
307
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
620
histone modification
619
histone
320
narrow histone mark
299
broad histone mark
187
control
76
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
261
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
June, 2019
120
July, 2018
111
May, 2019
95
February, 2023
82
November, 2017
77
July, 2019
76
April, 2019
66
May, 2022
63
October, 2018
47
September, 2023
46
December, 2017
40
May, 2021
40
November, 2019
39
March, 2020
35
May, 2024
26
November, 2018
25
February, 2020
19
April, 2020
19
October, 2017
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1697
bam
1558
bigWig
1075
tsv
791
bed narrowPeak
375
bigBed narrowPeak
337
fastq
234
tagAlign
157
txt
64
xls
48
bed broadPeak
27
bed bed3+
25
bed bedMethyl
25
bigBed bedMethyl
13
bigBed broadPeak
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2551
Homo sapiens
Biosample type
2560
tissue
983
primary cell
586
cell line
377
in vitro differentiated cells
10
stem cell
Organ
529
connective tissue
484
pancreas
470
adipose tissue
359
liver
276
heart
236
brain
230
kidney
158
bone element
127
blood vessel
127
vasculature
90
limb
70
artery
53
eye
50
musculature of body
43
nerve
25
spleen
20
lung
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2463
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1645
GRCh38
1562
hg19
Lab
2213
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
35
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
audit.NOT_COMPLIANT.category!
missing controlled_by
month_released!
June, 2019
organ_slims!
small intestine
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2560 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
DNase-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
60
68
6
7
4
3
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
144
20
1
3
1
1
1
2
1
kidney
49
26
75
64
6
1
1
1
bone element
84
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